Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NCOR1

Cell type

Cell type Class
Kidney
Cell type
293
Primary Tissue
Kidney
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
Isogenic HEK293 cells, SUMOylation-defective GR (GR3KR), dex, NCOR1 ChIP
cell line
HEK293
cell type
human embryonal kidney cell line
stably expressing
SUMOylation-defective GR (GR3KR)
treatment
dexamethasone
concentration
100 nM
time
1 h
chip antibody
NCOR1 (Bethyl, A301-145A, lot # 2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, lysates were clarified from sonicated nuclei, and protein-DNA complexes were isolated with specified antibody. For ATAC-seq, 100 000 isolated nuclei were treated with 2.5 µl Nextera Tn5 Transposase from Nextera kit. For ChIP-seq, NEBNext Ultra II DNA Library Prep Kit; for ATAC-seq, Illumina Nextera DNA Library Prep Kit

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
57765133
Reads aligned (%)
82.1
Duplicates removed (%)
7.9
Number of peaks
1133 (qval < 1E-05)

hg19

Number of total reads
57765133
Reads aligned (%)
81.5
Duplicates removed (%)
9.0
Number of peaks
1297 (qval < 1E-05)

Base call quality data from DBCLS SRA